Contacts of the helix formed by residues 510 - 528 (chain K) in PDB entry 6QX2
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASP 510 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24J ASP* 5.8 0.3 - - - +
508K ASP* 3.1 25.9 - - + +
509K ALA* 1.3 79.1 - - - +
511K VAL* 1.3 65.5 + - + +
512K ASP* 3.4 8.4 + - - +
513K GLY* 2.7 34.0 + - - -
514K ALA* 3.4 18.9 + - - +
517K ARG* 5.3 1.0 + - - -
582K GLY* 5.3 2.8 + - - -
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Residues in contact with VAL 511 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24J ASP* 3.8 17.5 - - + +
25J TYR* 3.5 18.2 - - + +
28J SER* 3.3 41.5 - - - +
33J ARG* 4.2 9.0 - - - +
81J HIS* 6.3 0.7 - - + -
510K ASP* 1.3 77.7 - - + +
512K ASP* 1.3 76.5 + - - +
513K GLY 3.2 0.2 - - - -
514K ALA* 3.2 10.2 + - - +
515K HIS 3.1 20.8 + - - -
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Residues in contact with ASP 512 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25J TYR* 3.5 3.3 - - - -
33J ARG* 2.5 40.3 + - - -
81J HIS* 4.6 4.5 - - - -
460K LYS* 2.9 27.5 + - - -
510K ASP* 3.4 8.2 + - - +
511K VAL* 1.3 81.3 - - - +
513K GLY* 1.3 59.8 + - - +
515K HIS* 3.6 6.3 + - - +
516K ILE* 3.2 35.9 + - + +
7N A 4.2 1.2 - - - +
8N C 3.8 33.2 - - - +
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Residues in contact with GLY 513 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
507K THR* 3.3 25.9 + - - +
508K ASP* 3.6 18.4 - - - -
510K ASP* 2.7 18.6 + - - -
512K ASP* 1.3 74.0 - - - +
514K ALA* 1.3 58.0 + - - +
516K ILE* 3.2 5.1 + - - -
517K ARG* 2.9 26.6 + - - +
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Residues in contact with ALA 514 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21J SER* 3.1 29.4 - - - +
24J ASP* 4.5 7.9 - - + +
510K ASP 3.4 12.5 + - - +
511K VAL* 3.2 12.6 + - - +
513K GLY* 1.3 72.0 - - - +
515K HIS* 1.3 57.1 + - - +
517K ARG* 3.3 31.5 - - - +
518K THR* 3.0 33.3 + - - +
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Residues in contact with HIS 515 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22J PHE* 4.5 4.7 - + - -
25J TYR* 3.4 56.0 - + + +
460K LYS* 3.3 24.6 + - + +
511K VAL 3.1 5.9 + - - -
512K ASP 3.8 7.9 - - - +
513K GLY 3.2 0.2 - - - -
514K ALA* 1.3 75.5 - - - +
516K ILE* 1.3 55.8 + - - +
518K THR* 2.7 32.4 + - - -
519K LEU* 3.0 26.4 + - + +
15O A 3.0 46.2 + - - -
16O C 3.0 14.1 + - - -
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Residues in contact with ILE 516 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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435K GLU* 4.4 24.0 - - + -
457K LEU* 4.7 11.2 - - + -
459K GLY* 4.2 26.0 - - - +
460K LYS* 4.0 24.9 - - + +
461K ILE* 5.3 5.6 - - + -
507K THR* 4.0 16.2 - - + -
512K ASP 3.2 19.6 + - - +
513K GLY* 3.2 6.0 + - - +
515K HIS* 1.3 74.3 - - - +
517K ARG* 1.3 56.8 + - - +
519K LEU* 3.4 7.2 + - - +
520K LEU* 3.1 41.5 + - + +
8N C 4.7 9.0 - - + +
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Residues in contact with ARG 517 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17J GLU* 2.4 26.9 + - - +
21J SER* 2.8 21.1 + - - +
505K ILE* 4.1 21.3 - - + +
507K THR* 2.9 29.3 + - - +
508K ASP 4.2 7.1 + - - -
509K ALA* 6.0 0.6 - - - +
510K ASP 5.3 1.2 + - - -
513K GLY 2.9 15.2 + - - +
514K ALA* 3.3 26.6 - - - +
516K ILE* 1.3 75.2 - - - +
518K THR* 1.3 57.6 + - - +
520K LEU* 3.4 3.0 + - - +
521K LEU* 3.0 46.7 + - + +
539K ILE* 4.0 28.9 - - + +
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Residues in contact with THR 518 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18J MET* 3.7 31.7 - - + +
21J SER* 3.7 8.5 - - - -
22J PHE* 3.7 37.4 - - + +
514K ALA 3.0 19.7 + - - +
515K HIS* 2.7 26.6 + - - -
517K ARG* 1.3 75.7 - - - +
519K LEU* 1.3 51.7 + - - +
521K LEU* 3.9 0.8 - - - +
522K THR* 2.6 38.0 + - - -
622K MET* 3.6 15.8 - - - +
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Residues in contact with LEU 519 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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460K LYS* 4.1 11.0 - - + -
461K ILE* 3.5 40.8 - - + +
462K LEU 4.6 4.7 - - - +
463K ASN* 3.7 37.0 - - + -
464K VAL* 5.2 1.4 + - - +
515K HIS* 3.0 48.1 + - + +
516K ILE* 3.7 6.3 - - - +
517K ARG 3.2 0.2 - - - -
518K THR* 1.3 74.3 + - - +
520K LEU* 1.3 64.7 + - - +
522K THR* 3.5 5.2 + - - -
523K PHE* 3.2 19.6 + - - +
622K MET* 3.7 15.5 - - + -
15O A 4.1 13.7 - - - +
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Residues in contact with LEU 520 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433K LEU* 4.5 13.0 - - + +
457K LEU* 3.9 28.5 - - + -
461K ILE* 3.9 14.1 - - + -
481K MET* 3.6 32.5 - - + -
505K ILE* 4.0 35.9 - - + -
507K THR* 4.8 2.5 - - + -
516K ILE* 3.1 29.0 + - + +
517K ARG 3.8 3.6 - - - +
519K LEU* 1.3 74.1 - - - +
521K LEU* 1.3 53.8 + - - +
523K PHE* 3.0 8.6 + - + +
524K PHE* 2.9 43.4 + - + -
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Residues in contact with LEU 521 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14J ILE* 4.7 11.4 - - + +
17J GLU* 3.8 29.8 - - + -
18J MET* 3.9 23.3 - - + -
505K ILE* 3.9 22.0 - - + -
517K ARG* 3.0 28.5 + - + +
518K THR* 3.9 5.4 - - + +
520K LEU* 1.3 75.3 - - - +
522K THR* 1.3 56.1 + - - +
524K PHE* 3.5 6.6 + - + +
525K TYR* 2.9 33.3 + - - +
532K ILE* 4.6 2.8 - - + +
537K VAL* 4.3 15.7 - - + -
539K ILE* 4.5 3.8 - - + -
606K VAL* 4.4 16.8 - - + -
618K PHE* 3.7 7.0 - - + -
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Residues in contact with THR 522 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18J MET* 3.9 0.2 - - - +
463K ASN* 4.2 4.0 - - - +
464K VAL* 3.9 12.1 - - + +
465K GLU* 3.9 35.2 - - + +
518K THR 2.6 24.1 + - - -
519K LEU* 3.6 8.3 - - - -
520K LEU 3.2 0.2 - - - -
521K LEU* 1.3 76.1 - - - +
523K PHE* 1.3 61.9 + - - +
525K TYR* 4.0 0.9 - - - +
526K ARG* 3.2 26.2 + - - +
618K PHE* 3.2 19.1 - - + -
622K MET* 3.2 26.4 - - + +
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Residues in contact with PHE 523 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
461K ILE* 6.1 1.3 - - + -
462K LEU 5.6 1.1 - - - +
464K VAL* 3.6 24.2 - - + +
472K ILE* 5.2 0.2 - - + -
478K ILE* 3.7 43.3 - - + -
481K MET* 3.6 31.9 - - + -
482K ILE* 4.0 19.7 - - + -
489K ILE* 4.7 0.2 - - + -
519K LEU 3.2 12.2 + - - +
520K LEU* 3.0 10.4 + - - +
522K THR* 1.3 73.4 - - - +
524K PHE* 1.3 82.1 + + - +
526K ARG 3.4 0.7 + - - -
527K PHE* 3.0 58.0 + + + +
528K MET* 4.0 17.7 - - + -
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Residues in contact with PHE 524 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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433K LEU* 3.7 23.1 - - + -
481K MET* 4.5 5.2 - - - -
485K PHE* 3.4 26.7 - + - -
503K ILE* 3.8 15.3 - - + -
505K ILE* 3.8 31.4 - - + -
520K LEU* 2.9 28.9 + - + +
521K LEU* 3.9 7.2 - - + +
523K PHE* 1.3 91.4 - + - +
525K TYR* 1.3 57.8 + - - +
528K MET* 2.8 49.5 + - - +
529K ARG* 3.1 0.3 + - - -
531K LEU* 4.6 6.3 - - + -
532K ILE* 3.8 17.5 - - + -
537K VAL* 4.2 16.8 - - + -
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Residues in contact with TYR 525 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14J ILE* 4.3 10.5 - - + -
521K LEU 2.9 18.8 + - - +
522K THR 4.1 2.7 - - - +
523K PHE 3.3 0.4 - - - -
524K PHE* 1.3 76.7 - - - +
526K ARG* 1.3 77.9 + - + +
529K ARG* 3.5 42.9 + - + +
532K ILE* 3.6 13.9 - - + -
608K LEU* 3.8 22.7 - - + -
611K ALA* 3.0 19.8 + - - -
614K ALA* 3.4 19.9 - - + +
615K ASP* 3.0 32.1 + - - -
618K PHE* 3.6 37.7 - + + -
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Residues in contact with ARG 526 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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464K VAL* 4.4 6.3 - - + -
465K GLU* 2.9 41.4 + - - +
490K GLY* 5.6 2.6 - - - -
522K THR* 3.2 20.3 + - + +
525K TYR* 1.3 92.8 + - + +
527K PHE* 1.3 82.7 + - + +
529K ARG* 5.1 0.9 - - - -
615K ASP* 3.1 50.0 + - - +
618K PHE* 3.8 10.9 - - + +
619K GLU* 4.1 2.4 - - - +
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Residues in contact with PHE 527 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
464K VAL* 4.1 19.3 - - + -
469K LEU* 3.9 24.7 - - + -
472K ILE* 3.7 32.8 - - + -
489K ILE* 3.6 36.0 - - + -
490K GLY* 3.1 31.6 + - - +
493K PHE* 4.6 1.9 - - - +
523K PHE* 3.0 38.9 + + + +
526K ARG* 1.3 98.6 - - + +
528K MET* 1.3 63.5 + - + +
529K ARG 3.9 1.8 - - - -
530K PRO* 5.6 0.2 - - - -
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Residues in contact with MET 528 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
482K ILE* 3.9 21.3 - - + -
485K PHE* 3.6 35.9 - - + -
487K THR* 3.9 16.4 - - - +
488K GLY 4.0 1.6 - - - +
489K ILE* 3.8 21.3 - - + -
493K PHE* 3.9 20.4 - - + -
523K PHE* 4.0 15.5 - - + -
524K PHE* 2.8 21.1 + - - +
527K PHE* 1.3 87.4 - - + +
529K ARG* 1.3 64.8 + - - +
530K PRO* 3.3 8.5 - - - -
531K LEU* 3.1 31.6 - - + +
532K ILE* 3.8 2.4 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il